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Updated: Jun 20, 2026
06:38
Pattern-based Search of Epigenomic Data Using GeNemo
Published on: October 8, 2017
Recode-2: new design, new search tools, and many more genes
Michaël Bekaert1, Andrew E Firth, Yan Zhang
1School of Biology and Environmental Science, University College Dublin, BioSciences Institute, University College Cork, Ireland.
Nucleic Acids Research
|September 29, 2009
Summary
Recoding, the non-standard genetic code read-out, is crucial for protein synthesis. The Recode-2 database now offers comprehensive data on ~1500 recoded genes, aiding researchers and software developers.
Area of Science:
- Molecular Biology
- Genetics
- Bioinformatics
Background:
- Translational recoding involves non-standard genetic code read-out, including frameshifting and stop codon readthrough.
- Accurate annotation of recoded genes is challenging and lags behind standard gene annotation.
- Existing databases require updates to encompass the growing knowledge of recoding events.
Purpose of the Study:
- To create an updated and improved database (Recode-2) for known translational recoding events.
- To provide a valuable resource for researchers studying gene expression and protein synthesis.
- To generate training data for gene annotation software development.
Main Methods:
- Compilation and curation of known recoding events from scientific literature.
- Development of a database (Recode-2) with detailed information on recoded genes.
- Implementation of advanced search, browsing, and visualization functionalities.
Main Results:
- Recode-2 database now includes approximately 1500 genes utilizing translational recoding, a threefold increase from the previous version.
- The database offers detailed information and enhanced visualization for annotated sequence elements.
- Complex search queries and browsing capabilities are available for users.
Conclusions:
- Recode-2 serves as a comprehensive and accessible resource for the study of translational recoding.
- The database facilitates research in molecular biology and aids in the development of gene annotation tools.
- Continued updates and expansion of Recode-2 are essential for tracking advancements in recoding research.
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